User: Charles Determan Jr

Reputation:
140
Status:
Trusted
Location:
United States
Last seen:
3 years, 10 months ago
Joined:
5 years, 11 months ago
Email:
c**********@gmail.com

Posts by Charles Determan Jr

<prev • 15 results • page 1 of 2 • next >
0
votes
0
answers
503
views
0
answers
Connecting with Stack Exchange account?
... I would like to connect my bioconductor account with my stack exchange account.  I try to do so by: 1. Going to my profile 2. Click 'Social Login' 3. Click Stack Exchange 4. Approve the connection But I only receive the following error: Social Network Login Failure An error occurred while att ...
meta written 4.1 years ago by Charles Determan Jr140
0
votes
0
answers
513
views
0
answers
CAMERA output to Neutral Monoisotopic Mass
... Greetings, I have completed some analysis with CAMERA and have the annotated ion output. I would like to upload the files to Metabosearch for identification. However, I am unable to upload the files into Metabosearch. The files are .xlsx format, column names are correct, but I can't get them to ...
convert camera written 5.3 years ago by Charles Determan Jr140
0
votes
1
answer
629
views
1
answers
Comment: C: DESeq2 design formula error?
... Thank you Steve and to Mike as well for the patch. Do you (or anyone) if there is a rough timeline as to when the patched package will be made available? I am on a restricted timeline and I have not compiled and installed an R package before but I will certainly give it a try if the patched packag ...
written 5.8 years ago by Charles Determan Jr140
0
votes
1
answer
629
views
1
answer
DESeq2 design formula error?
... Greetings, I am trying to run an interaction formula with DESeq2. I try and run the following code and get the following error: > design(DESeq.cds) <- formula(~ subject+group+group:times)> DESeq.cds <- DESeq(DESeq.cds)estimating size factorsestimating dispersionsyou had estimated disp ...
deseq deseq2 written 5.8 years ago by Charles Determan Jr140 • updated 5.8 years ago by Steve Lianoglou12k
0
votes
1
answer
805
views
1
answer
DESeq2 test over all timepoints?
... Greetings, I have used the DESeq package previously and have been recently using DESeq2. I am particularly interested in repeated measures designs and was wondering about applications with DESeq2. I have read through the manual and tried searching the archives but couldn't find too much direction ...
edger deseq deseq2 written 5.8 years ago by Charles Determan Jr140 • updated 5.8 years ago by Michael Love22k
0
votes
1
answer
951
views
1
answers
Comment: C: edgeR uneven group sizes
... My apologies, I feel rather silly that I misinterpreted your answer. I mistakenly read it as removing samples from the dataset and not from the design matrix. Thank you for clearing up that matter. You have answered my question completely. Regards, Charles ...
written 5.8 years ago by Charles Determan Jr140 • updated 4.3 years ago by Gordon Smyth37k
0
votes
1
answer
951
views
1
answers
Comment: C: edgeR uneven group sizes
... Gordon, The reason I ask is because I get an error if I attempt to run a design formula of (~group + group:subject + group:time) and I run estimateGLMCommonDisp(dge, design) I get the error: Error in glmFit.default(y, design = design, dispersion = dispersion, offset = offset, : Design matrix n ...
written 5.8 years ago by Charles Determan Jr140 • updated 4.3 years ago by Gordon Smyth37k
1
vote
1
answer
951
views
1
answer
edgeR uneven group sizes
... Hello, I recently had a question regarding repeated measures RNA-seq analysis. This has been thoroughly answered through an extension of the edgeR manual section 3.5. However this has lead to me towards another question as I attempted to extend such concepts to another experiment wherein the sample ...
edger written 5.8 years ago by Charles Determan Jr140 • updated 4.3 years ago by Gordon Smyth37k
0
votes
2
answers
1.6k
views
2
answers
Comment: C: Repeated Measures mRNA expression analysis
... I made an error in my last response, my subject was not set as a factor. The design matrix looks like the matrix below.  Perhaps a shorter question that will satisfy me is what I do with all the 'subject' coefficients. If I am only interested in the genes that respond differently to time in treated ...
written 5.8 years ago by Charles Determan Jr140 • updated 4.3 years ago by Gordon Smyth37k
0
votes
2
answers
1.6k
views
2
answers
Comment: C: Repeated Measures mRNA expression analysis
... Thank you Gordon, I apologize for not being more straightforward with a specific question.  I continue to be reminded by my ignorance in approaching statistical problems but my education continues.  I had previously been under the impression that different experimental designs have specific methods ...
written 5.8 years ago by Charles Determan Jr140 • updated 4.3 years ago by Gordon Smyth37k

Latest awards to Charles Determan Jr

Popular Question 3.9 years ago, created a question with more than 1,000 views. For Repeated Measures mRNA expression analysis I
Popular Question 3.9 years ago, created a question with more than 1,000 views. For Repeated Measures mRNA expression analysis I

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 16.09
Traffic: 146 users visited in the last hour